tbuckley/cabot-search huggingface dataset:
CD19/CD22 bispecific CAR-T cells for MRD-positive adult B cell acute lymphoblastic leukemia: a phase I clinical study
Authors: Jiahua Niu, Huiying Qiu, Fang Xiang, Lin Zhu, Jun Yang, Chongmei Huang, Kun Zhou, Yin Tong, Yu Cai, Baoxia Dong, Yuan Lu, Xuedong Sun, Liping Wan, Xueying Ding, Haopeng Wang, Xianmin Song
Journal: Blood Cancer Journal (2023)
A role for heritable transcriptomic variation in maize adaptation to temperate environments
Authors: Guangchao Sun, Huihui Yu, Peng Wang, Martha Lopez-Guerrero, Ravi V. Mural, Olivier N. Mizero, Marcin Grzybowski, Baoxing Song, Karin van Dijk, Daniel P. Schachtman, Chi Zhang, James C. Schnable
Journal: Genome biology (2023)

Abstract Background Transcription bridges genetic information and phenotypes. Here, we evaluated how changes in transcriptional regulation enable maize ( Zea mays ), a crop originally domesticated in the tropics, to adapt to temperate environments. Result We generated 572 unique RNA-seq datasets from the roots of 340 maize genotypes. Genes involved in core processes such as cell division, chromosome organization and cytoskeleton organization showed lower heritability of gene expression, while genes involved in anti-oxidation activity exhibited higher expression heritability. An expression genome-wide association study (eGWAS) identified 19,602 expression quantitative trait loci (eQTLs) associated with the expression of 11,444 genes. A GWAS for alternative splicing identified 49,897 splicing QTLs (sQTLs) for 7614 genes. Genes harboring both cis -eQTLs and cis -sQTLs in linkage disequilibrium were disproportionately likely to encode transcription factors or were annotated as responding to one or more stresses. Independent component analysis of gene expression data identified loci regulating co-expression modules involved in oxidation reduction, response to water deprivation, plastid biogenesis, protein biogenesis, and plant-pathogen interaction. Several genes involved in cell proliferation, flower development, DNA replication, and gene silencing showed lower gene expression variation explained by genetic factors between temperate and tropical maize lines. A GWAS of 27 previously published phenotypes identified several candidate genes overlapping with genomic intervals showing signatures of selection during adaptation to temperate environments. Conclusion Our results illustrate how maize transcriptional regulatory networks enable changes in transcriptional regulation to adapt to temperate regions.
Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra
Authors: Josué Barrera-Redondo, Jaruwatana Sodai Lotharukpong, Hajk-Georg Drost, Susana M. Coelho
Journal: Genome biology (2023)

Abstract We present GenEra ( https://github.com/josuebarrera/GenEra ), a DIAMOND-fueled gene-family founder inference framework that addresses previously raised limitations and biases in genomic phylostratigraphy, such as homology detection failure. GenEra also reduces computational time from several months to a few days for any genome of interest. We analyze the emergence of taxonomically restricted gene families during major evolutionary transitions in plants, animals, and fungi. Our results indicate that the impact of homology detection failure on inferred patterns of gene emergence is lineage-dependent, suggesting that plants are more prone to evolve novelty through the emergence of new genes compared to animals and fungi.
Efficacy and safety of pomalidomide, bortezomib, and dexamethasone combination chemotherapy for newly diagnosed multiple myeloma: POMACE Phase II Study
Authors: Fen Saj, Yadav Nisha, Prasanth Ganesan, Smita Kayal, Rakhee Kar, Dhanapathi Halanaik, Biswajit Dubashi
Journal: Blood Cancer Journal (2023)

Abstract Bortezomib, lenalidomide, and dexamethasone induction chemotherapy (VRd), followed by autologous stem cell transplantation (ASCT), are the standard of care for patients with newly diagnosed multiple myeloma (NDMM). Pomalidomide is currently approved for relapsed-refractory multiple myeloma. This single-arm, open-label, phase 2 study was the prospective evaluation of the efficacy and safety of bortezomib, pomalidomide, and dexamethasone (VPd) induction for NDMM. We used Fleming’s two-stage design for sample size calculation. We included transplant-eligible and ineligible patients aged 18–75 years in the study. The patients received four cycles of VPd induction followed by response assessment. Thirty-four patients were included in the study, of which 31 completed all four cycles of induction. The median age was 52 years (32–72). Thirty (91%) patients had multiple myeloma, and three had multiple plasmacytomas with less than 10% bone marrow involvement. Nine (27%) had ISS-I, 9 (27%) had ISS-II, and 15 (46%) had ISS-III myeloma. Three patients had high-risk cytogenetic abnormalities. After four cycles of VPd induction, ten patients (32%) achieved stringent CR, nine had CR (29%), eight (26%) had VGPR, and 4 (13%) had PR. Fifteen (48%) had a complete metabolic response (CMR) on PET-CT. Two patients developed SAEs. Anemia was the most common hematological toxicity. Peripheral neuropathy and constipation were the most common non-hematological toxicities. Patients with ≥VGPR had significantly better 12-month PFS than those with PR. Patients with ≥VGPR and CMR on PET-CT had significantly better 12-month OS. Our study showed VPd induction is safe and efficacious in NDMM. Further Phase 3 studies are necessary to establish the superiority and survival benefits.
A mixed-methods study exploring women’s perceptions and recommendations for a pregnancy app with monitoring tools
Authors: Natasa Lazarevic, Carol Pizzuti, Gillian Rosic, Céline Bœhm, Kathryn Williams, Corinne Caillaud
Journal: npj Digital Medicine (2023)

Digital health tools such as apps are being increasingly used by women to access pregnancy-related information. Conducted during the COVID-19 pandemic, this study investigated: (i) pregnant women's current usage of digital health tools to self-monitor and (ii) their interest in theoretical pregnancy app features (a direct patient-to-healthcare-professional communication tool and a body measurement tool). Using a mixed methods approach, 108 pregnant women were surveyed and 15 currently or recently pregnant women were interviewed online. We found that pregnant women used digital health tools to mainly access pregnancy related information and less so to self-monitor. Most participants were interested and enthusiastic about a patient-to-healthcare-professional communication tool. About half of the survey participants (49%) felt comfortable using a body measurement tool to monitor their body parts and 80% of interview participants were interested in using the body measurement to track leg/ankle swelling. Participants also shared additional pregnancy app features that they thought would be beneficial such as a "Digital Wallet" and a desire for a holistic pregnancy app that allowed for more continuous and personalised care. This study highlights the gaps and needs of pregnant women and should inform all stakeholders designing pregnancy digital healthcare. This study offers a unique insight into the needs of pregnant women during a very particular and unique period in human history.
From Conventional to Microfluidic: Progress in Extracellular Vesicle Separation and Individual Characterization (Adv. Healthcare Mater. 8/2023)
Authors: Mingrui Chen, Shujing Lin, Cheng Zhou, Daxiang Cui, Hossam Haick, Ning Tang
Journal: Advanced Healthcare Materials (2023)

Single Extracellular Vesicles Physical and biochemical characterization for single extracellular vesicles (EVs) has been gaining more attention for disease diagnosis. With the development of micromachining technologies, microfluidic chips can analyze EVs with precise manipulation, low cost and high portability. In the foreseeable future, the combination of EVs characterization with microfluidics and gradually individualizing them will be a meaningful direction. These considerations are reviewed by Daxiang Cui, Hossam Haick, Ning Tang, and co-workers, in article 2202437.
A Novel Computational Biomechanics Framework to Model Vascular Mechanopropagation in Deep Bone Marrow (Adv. Healthcare Mater. 8/2023)
Authors: Yunduo Charles Zhao, Yingqi Zhang, Fengtao Jiang, Chi Wu, Boyang Wan, Ruhma Syeda, Qing Li, Bo Shen, Lining Arnold Ju
Journal: Advanced Healthcare Materials (2023)

Mechanobiology In article 2201830 by Lining Arnold Ju and co-workers, a 3D-rendered tibia bone, featuring an observation window located in its diaphysis region, reveals a bone marrow that is abundant in vasculature. During exercise, the central arteries and transverse arterioles experience substantial surface stresses, which are then transferred from the cortical bone to the more pliable bone marrow through a process known as mechanopropagation.
Profiling of Tumor Cell‐Delivered Exosome by Surface Enhanced Raman Spectroscopy‐Based Biosensor for Evaluation of Nasopharyngeal Cancer Radioresistance (Adv. Healthcare Mater. 8/2023)
Authors: Qiong Wu, Qin Ding, Wanzun Lin, Youliang Weng, Shangyuan Feng, Rong Chen, Chuanben Chen, Sufang Qiu, Duo Lin
Journal: Advanced Healthcare Materials (2023)
Thyroid‐on‐a‐Chip: An Organoid Platform for In Vitro Assessment of Endocrine Disruption (Adv. Healthcare Mater. 8/2023)
Authors: Daniel J. Carvalho, Anna M. Kip, Mírian Romitti, Marta Nazzari, Andreas Tegel, Matthias Stich, Christian Krause, Florian Caiment, Sabine Costagliola, Lorenzo Moroni, Stefan Giselbrecht
Journal: Advanced Healthcare Materials (2023)

Thyroid Functionality Advanced 3D in vitro assays are urgently needed to better identify endocrine disrupting chemicals (EDCs) and their effects on the thyroid gland. Article 2201555 by Stefan Giselbrecht and co-workers reports a novel organ-on-a-chip system, which combines physiological thyroid organoids, reversibly sealed microdevices, and transcriptomic technologies for in vitro detection of EDCs.
Engineered Sandwich‐Structured Composite Wound Dressings with Unidirectional Drainage and Anti‐Adhesion Supporting Accelerated Wound Healing (Adv. Healthcare Mater. 8/2023)
Authors: Haipeng Wang, Wu Duan, Zhongjing Ren, Xinxin Li, Wenjie Ma, Yingchun Guan, Fuqiang Liu, Li Chen, Peng Yan, Xinguo Hou
Journal: Advanced Healthcare Materials (2023)

Composite Wound Dressings In article 2202685 by Peng Yan, Xinguo Hou, and co-workers, a novel sandwich-structured composite wound dressing (SCWD), integrating a superlyophobic polydimethylsiloxane layer, a superlyophilic gauze layer, and a lyophobic PDMS layer, with particular unidirectional drainage capability and anti-adhesion properties, is presented. The application of SCWDs can reduce wound infection, avoid tissue avulsion when replacing dressings, and accelerate wound healing by approximately 20%. Aided by lyophilized powders of stem cells supernatant, the wound healing process is further improved.
Mania and Schizo-Affective Disorder, Manic Type: A Comparison
Authors: RICHARD ABRAMS, MICHAEL ALAN TAYLOR
Journal: American Journal of Psychiatry (1976)

The authors report data gathered from a consecutive sample of 88 psychiatric inpatients who were diagnosed as having either manic disorder or schizo-affective disorder, manic type, according to Research Diagnostic Criteria (1) similar to those proposed for DSM-III. There were no differences between diagnostic groups on clinical psychopathological or demographic variables, individual or family history, or treatment response.
Oral Contraceptives and Renal and Retinal Complications in Young Women With Insulin-Dependent Diabetes Mellitus
Authors: Satish K. Garg
Journal: JAMA (1994)

<h3>Objective.</h3> —To evaluate the effects of oral contraceptives (OCs) as a possible risk factor for early diabetic renal and/or retinal complications. <h3>Design.</h3> —A retrospective case-control study. <h3>Setting.</h3> —A university hospital diabetes clinic. <h3>Participants.</h3> —Forty-three diabetic women who used OCs for 1 year or longer (mean, 3.4 years; range, 1.0 to 7.0 years) were compared with a computer-matched control group of 43 diabetic women who never used OCs. <h3>Main Outcome Measures.</h3> —Hemoglobin A<sub>1c</sub>levels, albumin excretion rates, and mean retinopathy scores. <h3>Results.</h3> —The mean±SEM age and duration of diabetes were 22.7±0.2 years (range, 17.1 to 30.5 years) and 13.8±0.8 years, respectively, for the study group. The mean longitudinal hemoglobin A<sub>1c</sub>values were similar for study subjects and control subjects. The final mean albumin excretion rates, reflecting diabetic renal damage, and the mean eye grades were not significantly different between the groups. <h3>Conclusions.</h3> —The use of OCs among young women with insulin-dependent diabetes mellitus does not pose an additional risk for the development of early diabetic retinopathy and/or nephropathy. (<i>JAMA</i>. 1994;271:1099-1102)
The Treatment of Chancroid
Authors: George P. Schmid
Journal: JAMA (1986)

Since the treatment of chancroid was reviewed in 1982, the results of subsequent treatment trials have offered the clinician additional therapeutic choices as well as shorter courses of therapy. Erythromycin (500 mg four times a day for seven days) provides consistently effective treatment for cases acquired throughout the world, although erythromycin-resistant strains have been isolated in Singapore. Sulfamethoxazole and trimethoprim (800 mg/160 mg orally twice a day for seven days), ceftriaxone (250 mg intramuscularly one time), and amoxicillin/clavulanic acid (500 mg/125 mg orally three times a day for seven days) are also efficacious. There is, however, significant geographic variability in the susceptibility of<i>Haemophilus ducreyi</i>to sulfamethoxazole and trimethoprim, suggesting this combination may become increasingly less effective, and a lack of in-depth experience in the treatment of chancroid with ceftriaxone and amoxicillin/ clavulanic acid. (<i>JAMA</i>1986;255:1757-1762)
Delineation of clinical course, outcomes, and prognostic factors in patients with T‐cell prolymphocytic leukemia
Authors: Ashley Rose, Ling Zhang, Akriti G. Jain, Abida Poovathukaran Babu, Lubomir Sokol, Hayder Saeed, Qianxing Mo, Wenyi Fan, Xiaohui Zhang
Journal: American Journal of Hematology (2023)

T-cell prolymphocytic leukemia (T-PLL) is a rare, post-thymic T-cell neoplasm with a diverse clinical course. T-PLL is typically associated with a poor prognosis; however, a subset of patients have inactive disease on initial presentation. There is a lack of accurate delineation of the disease based on initial clinical presentation and pathological assessment, hindering clinical decision-making. To characterize and delineate disease subtypes based on initial clinical presentation and pathologic assessment, we retrospectively reviewed 81 patients with T-PLL treated at our institution. We compared patients with T-PLL who initially presented with a relatively indolent or stable disease course to those with an aggressive disease course. Clinicopathologic characteristics, overall survival (OS), and prognostic factors were analyzed. Patients with inactive disease had a significantly longer OS than patients with active disease. At diagnosis, presence of B symptoms, low hemoglobin, low platelet count, lymphocyte doubling time of fewer than 3 months, and abnormal cytogenetics were associated with shorter OS. Cell morphology, immunophenotype, absolute lymphocyte count, lactate dehydrogenase levels, involvement of liver, spleen, skin or central nervous system, presence of TCL1 rearrangement or inv (14)/t(14;14), presence of chromosome 8 abnormalities, and presence of deletion of 11q were not associated with significant OS difference among the patients. Receiving alemtuzumab as first-line treatment and consolidation with allogeneic hematopoietic stem cell transplant were associated with better outcomes. T-PLL inactive and active disease subtypes can exhibit overlapping yet different clinical and pathological features. We describe several prognostic factors at diagnosis that can be used for risk stratification and aid in guiding treatment decisions.
Nano‐Strategies for Lignin Biomaterials toward Cancer Therapy
Authors: Thenapakiam Sathasivam, Jing Kai, Sigit Sugiarto, Yong Yu, Debbie Xiang Yun Soo, Qiang Zhu, Jasmeen Merzaban, Dan Kai
Journal: Advanced Healthcare Materials (2023)

Lignin is a nontoxic and biocompatible biopolymer with many promising characteristics, including a high tensile strength and antioxidant properties. This natural polymer can be processed through several chemical methods and modified into lignin nanomaterials for potential biomedical applications. This review summarizes the latest developments in nanolignin (NL)-based biomaterials for cancer therapy; various NL applications related to cancer therapy are considered, including drug and gene delivery, biosensing, bioimaging, and tissue engineering. The manuscript also outlines the potential use of these materials to improve the therapeutic potency of chemotherapeutic drugs by decreasing their dose and reducing their adverse effects. Due to its high surface area-to-volume ratio and the easy modification of its chemical components, NL could serve as an appropriate matrix for the binding and controlled release of various pharmaceutical agents. Moreover, the challenges in the utilization of NL-based materials for cancer therapy are discussed, along with the prospects of advances in such nanomaterials for medical research applications.
Gastrointestinal Kaposi’s Sarcoma
Authors: Deniz E Tekcan Sanli, Safak Kiziltas
Journal: New England Journal of Medicine (2023)

A 54-year-old man presented with a 10-day history of bloody diarrhea. A human immunodeficiency virus test was positive. On endoscopy, erythematous, polypoid lesions were seen throughout the gastrointestinal tract.
Rational design of a polysaccharide-based viral mimicry nanocomplex for potent gene silencing in inflammatory tissues
Authors: Han Gao, Shiqi Wang, Qiang Long, Ruoyu Cheng, Wenhua Lian, Artturi Koivuniemi, Ming Ma, Baoding Zhang, Jouni Hirvonen, Xianming Deng, Zehua Liu, Xiaofeng Ye, Hélder A. Santos
Journal: Journal of Controlled Release (2023)

Rational design and fabrication of small interfering RNA (siRNA) delivery system with simple production scheme, specific targeting capability, responsiveness to endogenous stimuli and potential multi-functionalities remains technically challenging. Herein, we screen and design a virus-mimicking polysaccharide nanocomplex that shows specific gene delivery capability in a selective subset of leukocytes. A virus-inspired poly (alkyl methacrylate-co-methacrylic acid) fragment was conjugated on barley β-glucans (EEPG) to endow the nanocomplex with pH-dependent endosomal membrane destabilization capabilities, as confirmed both biologically and computationally. siRNA loaded EEPG nanocomplex is feasibly fabricated in a single-step manner, which exhibit efficient gene silencing efficacy towards Dectin-1+ monocytes/macrophages. The inherent targeting affinity and feasible gene silencing potency of EEPG nanocomplex are investigated in three independent murine inflammation models, including myocardial infarction, lung fibrosis and acute liver damage. Significant enhanced accumulation level of EEPG nanocomplex is observed in cardiac lesion site, indicating its exclusive targeting capability for ischemic heart diseases. As a proof of concept, siTGF-β based gene therapy is confirmed in murine model with heart fibrosis. Overall, our findings suggest the designed EEPG nanocomplex is favorable for siRNA delivery, which might have translational potential as a versatile platform in inflammation-related diseases.
Evaluating colonoscopy screening intervals in patients with Lynch syndrome from a large Canadian registry
Authors: Melyssa Aronson, Robert Gryfe, Yun-Hee Choi, Kara Semotiuk, Spring Holter, Thomas Ward, Steve Gallinger, Zane Cohen, Laurent Briollais
Journal: JNCI Journal of the National Cancer Institute (2023)

Lynch syndrome (LS) screening guidelines originally recommended colonoscopy every 1 to 2 years, beginning between the ages of 20 and 25 years. Recent studies have questioned the benefits of these short screening intervals in preventing colorectal cancer (CRC). Our goal is to determine how colonoscopy screening intervals impact CRC in patients with LS.
Single cell proteogenomic analysis of aberrant monocytosis in TET2 mutant premalignant and malignant hematopoiesis
Authors: Terra Lasho, Christy Finke, Michael Timm, Ayalew Tefferi, Abhishek Mangaonkar, Horatiu Olteanu, Kaaren Reichard, Rhett Ketterling, Naseema Gangat, Zhuoer Xie, Jenna Fernandez, Nicholas Chia, Alexandre Gaspar-Maia, Moritz Binder, Mrinal M. Patnaik
Journal: Leukemia (2023)
Outstanding outcomes with two low intensity regimens in children with low-risk B-ALL: a report from COG AALL0932
Authors: Reuven J. Schore, Anne L. Angiolillo, John A. Kairalla, Meenakshi Devidas, Karen R. Rabin, Patrick Zweidler-McKay, Michael J. Borowitz, Brent Wood, Andrew J. Carroll, Nyla A. Heerema, Mary V. Relling, Johann Hitzler, Nina S. Kadan-Lottick, Kelly Maloney, Cindy Wang, William L. Carroll, Naomi J. Winick, Elizabeth A. Raetz, Mignon L. Loh, Stephen P. Hunger
Journal: Leukemia (2023)
Digital cognitive behavioral therapy for insomnia on depression and anxiety: a systematic review and meta-analysis
Authors: Suonaa Lee, Jae Won Oh, Kyung Mee Park, San Lee, Eun Lee
Journal: npj Digital Medicine (2023)

Abstract Despite research into the development of digital cognitive behavioral therapy for insomnia (dCBT-I), research into the outcomes of dCBT-I on insomnia and the associated clinical conditions of depression and anxiety have been limited. The PubMed, PsycINFO (Ovid), Embase, and Cochrane databases were searched for randomized controlled trials (RCTs) on adult patients with insomnia also having reported measures of depressive or anxiety symptoms. In total, 2504 articles were identified after duplicate removal, and 22 RCTs were included in the final meta-analysis. At the post-treatment assessment, the dCBT-I group had a small to moderate effect in alleviating depressive (standardized mean difference (SMD) = −0.42; 95% CI: −0.56, −0.28; p &lt; 0.001; k = 21) and anxiety symptoms (SMD = −0.29; 95% CI: −0.40, −0.19; p &lt; 0.001; k = 18), but had a large effect on sleep outcome measures (SMD = −0.76; 95% CI: −0.95, −0.57; p &lt; 0.001; k = 22). When considering treatment adherence, the treatment effects of those in the high adherent groups identified a more robust outcome, showing greater effect sizes than those in the low adherent groups for depression, anxiety, and sleep outcomes. Furthermore, additional subgroup analysis on studies that have used the fully automated dCBT-I treatment without the support of human therapists reported significant treatment effects for depression, anxiety, and sleep outcomes. The results demonstrated that digital intervention for insomnia yielded significant effects on alleviating depressive and anxiety symptoms as well as insomnia symptoms. Specifically, the study demonstrated significant effects on the above symptoms when considering treatment adherence and implementing fully automated dCBT-I.